apoptosisGraph {graph} | R Documentation

## KEGG apoptosis pathway graph

### Description

A graph representing the apoptosis pathway from KEGG, as well as a data.frame of attributes for use in plotting the graph with `Rgraphviz` and a list to compare the nodes with their respective LocusLink IDs.

### Usage

    data(apopGraph)

### Details

The `apopGraph` data set contains three objects:

The first is `apopGraph`, which is an object of class `graph-NEL` and represents the hsa04210 graph from `KEGG`.

The second is `apopAttrs`, which is a data.frame with two columns, and a row for every node in `apopGraph`. The first column lists what color the node is represented with on the `KEGG` site. The second column lists the type of the node - either `genesym` or `text`. Most nodes are of type `genesym` as they represent genes, but some of the nodes in the `KEGG` graph were not genes and thus those nodes are of type `text`.

The third, `apopLocusLink` is a named list where the names correspond to the node names in `apopGraph`. The values of the list are the LocusLink IDs that correspond to that node in the KEGG graph.

### Source

http://www.genome.ad.jp/kegg/pathway/hsa/hsa04210.html

### Examples

    data(apopGraph)
    if (require("Rgraphviz") & interactive())
      plot(apopGraph)

[Package graph version 1.66.0 Index]